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TABLE 3

Loci with P ≤ 10−7 in the conventional, intensive, or combined treatment groups using repeated A1C values (stage 2)

ChromosomeSNPPositionRepeated A1C P valueMean A1C P valueMean A1C by genotype from repeated analysis
A1A2Minor allele frequencyMissing data*Hardy-Weinberg equilibriumLocation of SNP to nearest gene
C homo (SE)Het (SE)R homo (SE)
Conventional treatment group              
    9 rs10810632 16,779,024 9.0 × 10−8 3.7 × 10−7 8.83 (0.05) 9.50 (0.13) 10.50 (0.63) 0.08 0.70 Intron 1 BNC2 
    9 rs6475082 16,779,436 1.8 × 10−7 7.4 × 10−7 8.83 (0.05) 9.48 (0.13) 10.50 (0.63) 0.08 0.71 Intron 1 BNC2 
    9 rs4961760 16,779,878 1.6 × 10−7 7.1 × 10−7 8.83 (0.05) 9.48 (0.13) 10.50 (0.63) 0.08 0.71 Intron 1 BNC2 
    9 rs2254193 16,791,850 2.0 × 10−7 1.1 × 10−6 8.84 (0.05) 9.57 (0.15) 10.47 (0.70) 0.07 0.67 Intron 1 BNC2 
    10 rs1358030 108,113,589 6.9 × 10−10 5.4 × 10−9 8.58 (0.07) 9.12 (0.07) 9.32 (0.13) 0.36 0.12 3′ SORCS1 
Intensive treatment group              
    15 rs493218 51,277,554 5.2 × 10−7 5.4 × 10−7 7.26 (0.04) 6.99 (0.07) 6.42 (0.22) 0.11 0.20 3′ WDR72 
    15 rs572221 51,291,924 6.6 × 10−7 6.8 × 10−7 7.26 (0.04) 6.99 (0.07) 6.42 (0.22) 0.11 0.25 3′ WDR72 
    15 rs690271 51,291,964 5.0 × 10−7 5.1 × 10−7 7.26 (0.04) 6.99 (0.07) 6.42 (0.22) 0.11 0.26 3′ WDR72 
    15 rs566369 51,295,884 5.0 × 10−7 5.1 × 10−7 7.26 (0.04) 6.99 (0.07) 6.42 (0.22) 0.11 0.26 3′ WDR72 
    15 rs482541 51,296,486 5.0 × 10−7 5.1 × 10−7 7.26 (0.04) 6.99 (0.07) 6.42 (0.22) 0.11 0.26 3′ WDR72 
Combined treatment groups              
    10 rs1358030 108,113,589 3.8 × 10−10 2.2 × 10−9 7.84 (0.04) 8.16 (0.04) 8.36 (0.08) 0.36 0.12 3′ SORCS1 
    14 rs11624318 94,375,765 2.7 × 10−7 7.6 × 10−6 8.07 (0.04) 8.11 (0.05) 7.43 (0.12) 0.21 0.28 5′ GSC 
    14 rs11160219 94,405,244 4.3 × 10−7 3.4 × 10−5 8.10 (0.04) 8.08 (0.05) 7.47 (0.11) 0.24 0.49 5′ GSC 
    14 rs8007115 94,407,241 5.4 × 10−7 4.1 × 10−5 8.10 (0.04) 8.07 (0.05) 7.47 (0.11) 0.23 0.59 5′ GSC 
ChromosomeSNPPositionRepeated A1C P valueMean A1C P valueMean A1C by genotype from repeated analysis
A1A2Minor allele frequencyMissing data*Hardy-Weinberg equilibriumLocation of SNP to nearest gene
C homo (SE)Het (SE)R homo (SE)
Conventional treatment group              
    9 rs10810632 16,779,024 9.0 × 10−8 3.7 × 10−7 8.83 (0.05) 9.50 (0.13) 10.50 (0.63) 0.08 0.70 Intron 1 BNC2 
    9 rs6475082 16,779,436 1.8 × 10−7 7.4 × 10−7 8.83 (0.05) 9.48 (0.13) 10.50 (0.63) 0.08 0.71 Intron 1 BNC2 
    9 rs4961760 16,779,878 1.6 × 10−7 7.1 × 10−7 8.83 (0.05) 9.48 (0.13) 10.50 (0.63) 0.08 0.71 Intron 1 BNC2 
    9 rs2254193 16,791,850 2.0 × 10−7 1.1 × 10−6 8.84 (0.05) 9.57 (0.15) 10.47 (0.70) 0.07 0.67 Intron 1 BNC2 
    10 rs1358030 108,113,589 6.9 × 10−10 5.4 × 10−9 8.58 (0.07) 9.12 (0.07) 9.32 (0.13) 0.36 0.12 3′ SORCS1 
Intensive treatment group              
    15 rs493218 51,277,554 5.2 × 10−7 5.4 × 10−7 7.26 (0.04) 6.99 (0.07) 6.42 (0.22) 0.11 0.20 3′ WDR72 
    15 rs572221 51,291,924 6.6 × 10−7 6.8 × 10−7 7.26 (0.04) 6.99 (0.07) 6.42 (0.22) 0.11 0.25 3′ WDR72 
    15 rs690271 51,291,964 5.0 × 10−7 5.1 × 10−7 7.26 (0.04) 6.99 (0.07) 6.42 (0.22) 0.11 0.26 3′ WDR72 
    15 rs566369 51,295,884 5.0 × 10−7 5.1 × 10−7 7.26 (0.04) 6.99 (0.07) 6.42 (0.22) 0.11 0.26 3′ WDR72 
    15 rs482541 51,296,486 5.0 × 10−7 5.1 × 10−7 7.26 (0.04) 6.99 (0.07) 6.42 (0.22) 0.11 0.26 3′ WDR72 
Combined treatment groups              
    10 rs1358030 108,113,589 3.8 × 10−10 2.2 × 10−9 7.84 (0.04) 8.16 (0.04) 8.36 (0.08) 0.36 0.12 3′ SORCS1 
    14 rs11624318 94,375,765 2.7 × 10−7 7.6 × 10−6 8.07 (0.04) 8.11 (0.05) 7.43 (0.12) 0.21 0.28 5′ GSC 
    14 rs11160219 94,405,244 4.3 × 10−7 3.4 × 10−5 8.10 (0.04) 8.08 (0.05) 7.47 (0.11) 0.24 0.49 5′ GSC 
    14 rs8007115 94,407,241 5.4 × 10−7 4.1 × 10−5 8.10 (0.04) 8.07 (0.05) 7.47 (0.11) 0.23 0.59 5′ GSC 

Mean A1C values are results from stage 1. Longitudinal repeated A1C P values are the results from stage 2. C homo, Het, and R homo are least square means of A1C in the common homozygote, heterozygote and rare homozygote genotype groups, respectively, with SEs in parentheses, back-transformed from analysis of repeated lnA1C. NB. The statistical results for the repeated A1C were based on normal scores. A1 = minor, A2 = major allele.

*Number of individuals with missing genotype data. Position is the nucleotide location from build 36. Location relative to gene is from dbSNP build 129.

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